With all that removed and a blanking bolt in the hole, I removed the 4 bolts holding the transfer cable to the gearbox.
There are 4 long bolts you can see in the picture and this holds the metal bracket on to the gearbox and also metal clamp that all the cables clip onto. I removed all of this. Also at the top of the picture there is a small 10 mm bolt that clamps a cable on to the gearbox. This needs to be removed too. With this off, I pulled everything up through the hole by the gear stick and cable tied them up and out the way.